A literature network of human genes for high-throughput analysis of gene expression
@article{Jenssen2001ALN, title={A literature network of human genes for high-throughput analysis of gene expression}, author={Tor-Kristian Jenssen and A. L{\ae}greid and J. Komorowski and E. Hovig}, journal={Nature Genetics}, year={2001}, volume={28}, pages={21-28} }
We have carried out automated extraction of explicit and implicit biomedical knowledge from publicly available gene and text databases to create a gene-to-gene co-citation network for 13,712 named human genes by automated analysis of titles and abstracts in over 10 million MEDLINE records. The associations between genes have been annotated by linking genes to terms from the medical subject heading (MeSH) index and terms from the gene ontology (GO) database. The extracted database and… CONTINUE READING
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References
SHOWING 1-10 OF 37 REFERENCES
Genes, Themes, and Microarrays: Using Information Retrieval for Large-Scale Gene Analysis
- Computer Science, Medicine
- ISMB
- 2000
- 188
- PDF
Biobibliometrics: information retrieval and visualization from co-occurrences of gene names in Medline abstracts.
- Computer Science, Medicine
- Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
- 2000
- 332
- PDF
Automated extraction of information in molecular biology
- Computer Science, Medicine
- FEBS letters
- 2000
- 106
EDGAR: extraction of drugs, genes and relations from the biomedical literature.
- Computer Science, Medicine
- Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
- 2000
- 466
- PDF
Identifying the Interaction between Genes and Gene Products Based on Frequently Seen Verbs in Medline Abstracts.
- Computer Science, Medicine
- Genome informatics. Workshop on Genome Informatics
- 1998
- 248
- PDF
Automatic Extraction of Biological Information from Scientific Text: Protein-Protein Interactions
- Computer Science, Medicine
- ISMB
- 1999
- 489
- PDF
Two applications of information extraction to biological science journal articles: enzyme interactions and protein structures.
- Computer Science, Medicine
- Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
- 2000
- 220
- PDF
Automatic Annotation for Biological Sequences by Etraction of Keywords from MEDLINE Abstracts: Development of a Prototype System
- Computer Science, Medicine
- ISMB
- 1997
- 61
- PDF